Downloadable programs
These links will allow you to download code that I have used in various simulation or analysis contexts. The code is provided freely, but without warranty. That is, although I think that the programs will probably compile and run just fine on your system, I can make no promises. Some of the programs come with a bit of documentation that explains how to use it. Others are just the raw code. All are written in c. Some use math routines from Numerical Reicpes in C. For these programs, the download includes those routines. Others reference GSL (the Gnu Scientific Library). For these programs, if you do not have GSL installed, you will need to do so. You can download the latest version for free here.
If you have any questions about any of these, feel free to contact me. For the Mutant Tracker program, please also contact me if you have suggestions or requests for extensions that would be useful for your research, and I will try to add them.
Mutant Tracker
This program permits simulation of the coalescent process in a continuous habitat with strict local density regulation. This is approximately equivalent to a lattice model, where exactly one individual occupies each lattice point. The program makes use of input files that can be used to specify spatial and temporal variation in population density, as well as barriers to gene flow (e.g., rivers or mountain ranges), permitting explicit incorporation of certain types of geographical features.
DIMPLE
This program performs composite-likelihood based estimation of the density and dispersal variance for a population occupying a finite, linear habitat (such as a coastline).
More things will be added as they are converted into a form that is useable by other people.